PDB Short entry for 1YQL HEADER HYDROLASE/DNA 02-FEB-05 1YQL TITLE CATALYTICALLY INACTIVE HOGG1 CROSSLINKED WITH 7-DEAZA-8-AZAGUANINE TITLE 2 CONTAINING DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(P*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*C)-3'; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(P*GP*TP*CP*CP*AP*(PPW)P*GP*TP*CP*TP*AP*C)-3'; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: N-GLYCOSYLASE/DNA LYASE; COMPND 11 CHAIN: A; COMPND 12 FRAGMENT: 8-OXOGUANINE DNA GLYCOSYLASE; COMPND 13 EC: 3.2.2.-; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: OGG1, MMH, MUTM, OGH1; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL-21(DE3); SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PET-30A KEYWDS DISULFIDE CROSSLINKING, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.BANERJEE,W.YANG,M.KARPLUS,G.L.VERDINE REVDAT 4 29-NOV-23 1YQL 1 REMARK REVDAT 3 20-OCT-21 1YQL 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1YQL 1 VERSN REVDAT 1 05-APR-05 1YQL 0 JRNL AUTH A.BANERJEE,W.YANG,M.KARPLUS,G.L.VERDINE JRNL TITL STRUCTURE OF A REPAIR ENZYME INTERROGATING UNDAMAGED DNA JRNL TITL 2 ELUCIDATES RECOGNITION OF DAMAGED DNA. JRNL REF NATURE V. 434 612 2005 JRNL REFN ISSN 0028-0836 JRNL PMID 15800616 JRNL DOI 10.1038/NATURE03458 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 129924.840 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 15920 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1600 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.69 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1269 REMARK 3 BIN R VALUE (WORKING SET) : 0.2730 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 150 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.028 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2449 REMARK 3 NUCLEIC ACID ATOMS : 516 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 117 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.68000 REMARK 3 B22 (A**2) : 2.68000 REMARK 3 B33 (A**2) : -5.35000 REMARK 3 B12 (A**2) : 6.68000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.32 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.45 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.890 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.280 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.130 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.930 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.990 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 35.99 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NSLS REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NSLS REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YQL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1000031815. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15920 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 43.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 140.49600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 70.24800 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 105.37200 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 35.12400 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 175.62000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 140.49600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 70.24800 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 35.12400 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 105.37200 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 175.62000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 80 REMARK 465 ASP A 81 REMARK 465 LYS A 82 REMARK 465 SER A 326 REMARK 465 ARG A 327 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 84 CG CD OE1 NE2 REMARK 470 ARG A 87 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 122 CG CD OE1 OE2 REMARK 470 GLN A 125 CG CD OE1 NE2 REMARK 470 LYS A 126 CG CD CE NZ REMARK 470 GLN A 128 CG CD OE1 NE2 REMARK 470 GLN A 164 CG CD OE1 NE2 REMARK 470 GLN A 227 CG CD OE1 NE2 REMARK 470 SER A 286 OG REMARK 470 LYS A 289 CG CD CE NZ REMARK 470 GLN A 294 CG CD OE1 NE2 REMARK 470 GLN A 325 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DG B 1 P DG B 1 OP3 -0.087 REMARK 500 DG C 18 P DG C 18 OP3 -0.086 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 19 64.05 -117.59 REMARK 500 CYS A 28 107.52 -171.72 REMARK 500 LEU A 33 135.68 -171.33 REMARK 500 GLN A 43 -66.68 -91.37 REMARK 500 ASP A 61 14.80 58.47 REMARK 500 SER A 148 125.96 -36.62 REMARK 500 CYS A 149 62.49 33.15 REMARK 500 LEU A 170 -93.91 -101.74 REMARK 500 ASP A 174 -127.62 56.30 REMARK 500 TYR A 203 -9.94 -59.19 REMARK 500 GLU A 218 -28.22 -142.16 REMARK 500 LYS A 261 78.81 -107.81 REMARK 500 ASP A 268 -167.55 -119.55 REMARK 500 THR A 285 -88.94 -89.75 REMARK 500 SER A 286 147.41 -36.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 328 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC C 26 OP2 REMARK 620 2 DC C 26 OP1 48.8 REMARK 620 3 CYS A 241 O 125.8 174.2 REMARK 620 4 LEU A 243 O 130.8 88.8 97.0 REMARK 620 5 VAL A 246 O 79.8 99.7 80.4 85.5 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 328 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YQK RELATED DB: PDB REMARK 900 HOGG1 CROSSLINKED WITH GUANINE CONTAINING DNA REMARK 900 RELATED ID: 1EBM RELATED DB: PDB REMARK 900 HOGG1 BOUND TO OXOG CONTAINING DNA REMARK 900 RELATED ID: 1KO9 RELATED DB: PDB REMARK 900 NATIVE STRUCTURE OF HOGG1 REMARK 900 RELATED ID: 1YQR RELATED DB: PDB REMARK 900 HOGG1 CROSSLINKED TO OXOG CONTAINING DNA REMARK 900 RELATED ID: 1YQM RELATED DB: PDB REMARK 900 CROSSLINKED TO 7-DEAZAGUANINE CONTAINING DNA DBREF 1YQL A 12 327 UNP O15527 OGG1_HUMAN 12 327 DBREF 1YQL B 1 13 PDB 1YQL 1YQL 1 13 DBREF 1YQL C 18 29 PDB 1YQL 1YQL 18 29 SEQADV 1YQL SER A 9 UNP O15527 CLONING ARTIFACT SEQADV 1YQL GLU A 10 UNP O15527 CLONING ARTIFACT SEQADV 1YQL PHE A 11 UNP O15527 CLONING ARTIFACT SEQADV 1YQL CYS A 149 UNP O15527 ASN 149 ENGINEERED MUTATION SEQADV 1YQL GLN A 249 UNP O15527 LYS 249 ENGINEERED MUTATION SEQRES 1 B 13 DG DG DT DA DG DA DC DC DT DG DG DA DC SEQRES 1 C 12 DG DT DC DC DA PPW DG DT DC DT DA DC SEQRES 1 A 319 SER GLU PHE GLY HIS ARG THR LEU ALA SER THR PRO ALA SEQRES 2 A 319 LEU TRP ALA SER ILE PRO CYS PRO ARG SER GLU LEU ARG SEQRES 3 A 319 LEU ASP LEU VAL LEU PRO SER GLY GLN SER PHE ARG TRP SEQRES 4 A 319 ARG GLU GLN SER PRO ALA HIS TRP SER GLY VAL LEU ALA SEQRES 5 A 319 ASP GLN VAL TRP THR LEU THR GLN THR GLU GLU GLN LEU SEQRES 6 A 319 HIS CYS THR VAL TYR ARG GLY ASP LYS SER GLN ALA SER SEQRES 7 A 319 ARG PRO THR PRO ASP GLU LEU GLU ALA VAL ARG LYS TYR SEQRES 8 A 319 PHE GLN LEU ASP VAL THR LEU ALA GLN LEU TYR HIS HIS SEQRES 9 A 319 TRP GLY SER VAL ASP SER HIS PHE GLN GLU VAL ALA GLN SEQRES 10 A 319 LYS PHE GLN GLY VAL ARG LEU LEU ARG GLN ASP PRO ILE SEQRES 11 A 319 GLU CYS LEU PHE SER PHE ILE CYS SER SER CYS ASN ASN SEQRES 12 A 319 ILE ALA ARG ILE THR GLY MET VAL GLU ARG LEU CYS GLN SEQRES 13 A 319 ALA PHE GLY PRO ARG LEU ILE GLN LEU ASP ASP VAL THR SEQRES 14 A 319 TYR HIS GLY PHE PRO SER LEU GLN ALA LEU ALA GLY PRO SEQRES 15 A 319 GLU VAL GLU ALA HIS LEU ARG LYS LEU GLY LEU GLY TYR SEQRES 16 A 319 ARG ALA ARG TYR VAL SER ALA SER ALA ARG ALA ILE LEU SEQRES 17 A 319 GLU GLU GLN GLY GLY LEU ALA TRP LEU GLN GLN LEU ARG SEQRES 18 A 319 GLU SER SER TYR GLU GLU ALA HIS LYS ALA LEU CYS ILE SEQRES 19 A 319 LEU PRO GLY VAL GLY THR GLN VAL ALA ASP CYS ILE CYS SEQRES 20 A 319 LEU MET ALA LEU ASP LYS PRO GLN ALA VAL PRO VAL ASP SEQRES 21 A 319 VAL HIS MET TRP HIS ILE ALA GLN ARG ASP TYR SER TRP SEQRES 22 A 319 HIS PRO THR THR SER GLN ALA LYS GLY PRO SER PRO GLN SEQRES 23 A 319 THR ASN LYS GLU LEU GLY ASN PHE PHE ARG SER LEU TRP SEQRES 24 A 319 GLY PRO TYR ALA GLY TRP ALA GLN ALA VAL LEU PHE SER SEQRES 25 A 319 ALA ASP LEU ARG GLN SER ARG MODRES 1YQL PPW C 23 DG HET PPW C 23 22 HET CA C 201 1 HET CA A 328 1 HETNAM PPW 7-DEAZA-8-AZA-2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE HETNAM CA CALCIUM ION FORMUL 2 PPW C10 H14 N5 O7 P FORMUL 4 CA 2(CA 2+) FORMUL 6 HOH *117(H2 O) HELIX 1 1 THR A 19 TRP A 23 5 5 HELIX 2 2 PRO A 29 LEU A 33 5 5 HELIX 3 3 ARG A 34 LEU A 39 1 6 HELIX 4 4 THR A 89 PHE A 100 1 12 HELIX 5 5 THR A 105 ASP A 117 1 13 HELIX 6 6 ASP A 117 PHE A 127 1 11 HELIX 7 7 ASP A 136 CYS A 146 1 11 HELIX 8 8 ASN A 151 GLY A 167 1 17 HELIX 9 9 SER A 183 ALA A 188 1 6 HELIX 10 10 GLU A 191 LEU A 199 1 9 HELIX 11 11 TYR A 203 GLU A 218 1 16 HELIX 12 12 GLY A 221 LEU A 228 1 8 HELIX 13 13 SER A 232 CYS A 241 1 10 HELIX 14 14 GLY A 247 ALA A 258 1 12 HELIX 15 15 ASP A 268 SER A 280 1 13 HELIX 16 16 SER A 292 GLY A 308 1 17 HELIX 17 17 TYR A 310 GLN A 325 1 16 SHEET 1 A 5 ALA A 24 PRO A 27 0 SHEET 2 A 5 GLN A 72 TYR A 78 -1 O CYS A 75 N ALA A 24 SHEET 3 A 5 GLN A 62 GLN A 68 -1 N VAL A 63 O TYR A 78 SHEET 4 A 5 TRP A 55 LEU A 59 -1 N TRP A 55 O LEU A 66 SHEET 5 A 5 TRP A 47 ARG A 48 -1 N ARG A 48 O SER A 56 SHEET 1 B 2 ARG A 169 LEU A 173 0 SHEET 2 B 2 VAL A 176 HIS A 179 -1 O TYR A 178 N LEU A 170 LINK O3' DA C 22 P PPW C 23 1555 1555 1.60 LINK O3' PPW C 23 P DG C 24 1555 1555 1.60 LINK OP1 DG C 24 CA CA C 201 1555 1555 2.74 LINK OP2 DC C 26 CA CA A 328 1555 1555 3.39 LINK OP1 DC C 26 CA CA A 328 1555 1555 2.36 LINK O CYS A 241 CA CA A 328 1555 1555 2.36 LINK O LEU A 243 CA CA A 328 1555 1555 2.70 LINK O VAL A 246 CA CA A 328 1555 1555 2.90 SITE 1 AC1 2 DA C 22 DG C 24 SITE 1 AC2 4 CYS A 241 LEU A 243 VAL A 246 DC C 26 CRYST1 92.322 92.322 210.744 90.00 90.00 120.00 P 65 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010832 0.006254 0.000000 0.00000 SCALE2 0.000000 0.012507 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004745 0.00000